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| Status |
Public on Mar 02, 2023 |
| Title |
Single-cell transcriptomic and epigenetic profiling of mouse myenteric plexus glial cells |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
This study was undertaken to define the molecular subtypes of myenteric plexus glial cells in mice, and to understand the molecular basis for glial cells’ capacity to become neurons. Methods: We performed single-cell RNA sequencing and single-nucleus ATAC sequencing of enteric neurons from small intestine at the adolescent mice (on or near postnatal day of life 14). We also performed both single-cell RNA sequencing and single-nucleus ATAC sequencing on 3-dimensional neurosphere cultures. Results: We identify numerous distinct transcriptional subgroups of myenteric plexus glial cells, including cells expressing genes associated with neuronal differentiation. Epigenetic analysis shows distinct chromatin accessibility profiles that correlate with gene expression patterns. Glial cells maintain open chromatin at gene loci associated with neuronal fate. 3-dimensional cultures provide a niche for active neurogenesis. Chromatin closes at glial-associate loci during neurogenesis. Conclusion: Utilizing single-cell RNA sequencing and single-nucleus ATAC sequencing, we identify myenteric glial cell subtypes and uncover a molecular basis for a glial-to-neuronal fate transition.
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| Overall design |
Use of 10X Genomics technology to analyze single-cell transcriptomics and single-cell epigenetics of myenteric plexus glial cells, as well as 3-dimensional neurosphere cultures derived from these cells.
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| Contributor(s) |
Goldstein AM |
| Citation(s) |
36857184 |
| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| R01 DK119210 |
Characterizing neurogenic progenitors in the adult intestine |
MASSACHUSETTS GENERAL HOSPITAL |
ALLAN M GOLDSTEIN |
| F32 DK121440 |
Transcription factors mediate postnatal neurogenesis from enteric glial cells |
MASSACHUSETTS GENERAL HOSPITAL |
Richard A Guyer |
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| |
| Submission date |
Sep 29, 2021 |
| Last update date |
May 12, 2023 |
| Contact name |
Allan M Goldstein |
| E-mail(s) |
amgoldstein@partners.org
|
| Phone |
617-726-0270
|
| Organization name |
Massachusetts General Hospital
|
| Department |
Pediatric Surgery
|
| Lab |
Goldstein Lab
|
| Street address |
185 Cambridge St
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02114 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (11)
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| Relations |
| SRA |
SRP339293 |
| BioProject |
PRJNA767315 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE184981_3d_multiome_meta.csv.gz |
4.6 Mb |
(ftp)(http) |
CSV |
| GSE184981_3d_multiome_peakcounts.csv.gz |
75.0 Mb |
(ftp)(http) |
CSV |
| GSE184981_3d_multiome_snrna_counts.csv.gz |
33.6 Mb |
(ftp)(http) |
CSV |
| GSE184981_3d_scrna_counts.csv.gz |
53.6 Mb |
(ftp)(http) |
CSV |
| GSE184981_3d_scrna_meta.csv.gz |
1.4 Mb |
(ftp)(http) |
CSV |
| GSE184981_glia_multiome_snrna_counts.csv.gz |
7.6 Mb |
(ftp)(http) |
CSV |
| GSE184981_glia_scrna_counts.csv.gz |
28.5 Mb |
(ftp)(http) |
CSV |
| GSE184981_glia_scrna_meta.csv.gz |
593.1 Kb |
(ftp)(http) |
CSV |
| GSE184981_glia_snatac_meta.csv.gz |
4.9 Mb |
(ftp)(http) |
CSV |
| GSE184981_glia_snatac_peakcounts.csv.gz |
122.1 Mb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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